RnoINT0086080 @ rn6
Intron Retention
Gene
ENSRNOG00000015727 | Loxl4
Description
lysyl oxidase-like 4 [Source:RGD Symbol;Acc:1308588]
Coordinates
chr1:261847612-261848695:-
Coord C1 exon
chr1:261848517-261848695
Coord A exon
chr1:261847818-261848516
Coord C2 exon
chr1:261847612-261847817
Length
699 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
GGTGACTCTATGCCTTGCAGGGC
3' ss Score
6.31
Exon sequences
Seq C1 exon
GCCCCATCTGGCTGGACAATGTCCGTTGTTTGGGCACCGAGGACACCCTAGATCAGTGTGGCTCTAACGGCTGGGGTGTCAGTGACTGCAGACACTCAGAAGACGTTGGGGTGGTGTGCCATCCACGGCGCCAGCAGGGGTATCACTCTGAGAAGGTCTCCAATGCCCTCGGGCCCCAG
Seq A exon
GTGAGGCGGCTGTCTAGGTCCTGTCCTGAGCTGAGGGCTGGATGGGGCAGGAAGCCTCCTGCAGAGTGAACATGGAGGAAGGAGAAGTCATTCATGTAGAACCAGTCAGGGGACCAGACACTAGGCCTGGTGGGACCTCAGAAGCTGCTCCCTATGAAGGAGGCAGACGTGGGACTAAGGGGCTGCTTCAGCCACAAGGCTTGGCCACAATTGCTGCCTCTTCCTAGCACAAACAACCCCAAGCTAAAAACAGCTTAAGCCAAACAGCAGTAATGGGCAGGGCAGGGAGCTGGCTCCCACCCCCTACTTGCCAGGCAGTCTCGGCCTGAGGACAGTTGGTCCTGGCACACTGGATCTGCGATGAGCCACCTTGGGGTGCTCCACACTGGTTTGAGTCACCCAGAGGTAGGGGTGGTGGGTCCTGAAGAGTCAAGGAAATGGGTTGGTCTCTCTGTTCAAGCCCATTTCAGTTCTTTTCAAGGTGATAGATCCAAGGAGGGAAAGGGTCTAGACAAACCAAAACTTTGGCTTCCATTTTCCCTGTAGCCTTCAGCAAATGTCTCCTGCTCTCTGGGCCTGACAATAAGGGGCAGGAAGGTGATTCTAAGCCTGGTCTTCTCAGGAAAATCTGCAGTGGTCTCCAGGAGGCCCAGGACCCCAGGAACATGGCCTATGGTGAGGTGACTCTATGCCTTGCAG
Seq C2 exon
GGCCGGCGGCTAGAAGAGGTGCGGCTCAAACCCATCCTCGCCAGTGCCAAAAGGCACAGCCCAGTAACTGAGGGGGCTGTGGAAGTACGGTACGAGGGCCACTGGAGGCAGGTGTGTGACCAGGGCTGGACCATGAACAACAGCAGGGTTGTGTGCGGGATGCTGGGCTTTCCCAGTCAGGCACCTGTCAACAGCCACTACTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000015727:ENSRNOT00000021144:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.117 A=NA C2=0.029
Domain overlap (PFAM):
C1:
PF0053013=SRCR=PD(41.2=66.7)
A:
NA
C2:
PF0053013=SRCR=PU(43.2=73.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAATGTCCGTTGTTTGGGCAC
R:
CTGTTGACAGGTGCCTGACTG
Band lengths:
357-1056
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]